Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SUPT5H

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HCT116 Spt5-HA-dhfr pCW57AviSpt5(1-820)CTR1_TE7
cell line
HCT116
growth conditions
McCoy's 10% FCS, +hygromycin, +G418, +blasticidin, +doxycycline
antibody
Rabbit anti-avi-tag (GenScript A00674)

Sequenced DNA Library

library_name
GSM6132230
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross-linked chromatin was sonicated with a Covaris ME220 ultrasonicator 1-2 mg of cross-linked extract was immunoprecipitated, and prepared for illumina library construction by repair with Klenow, T4 DNA polymerase and T4 polynucleotide kinase, A-tailing with Klenow exo-, ligation to branched adaptors, SPRI bead purification of ~200bp fragments, and amplification (15-18 cycles) with Illumina Tru-seq primers using Phusion DNA polymerase.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
22442256
Reads aligned (%)
77.2
Duplicates removed (%)
6.6
Number of peaks
1186 (qval < 1E-05)

hg19

Number of total reads
22442256
Reads aligned (%)
76.8
Duplicates removed (%)
6.7
Number of peaks
1144 (qval < 1E-05)

Base call quality data from DBCLS SRA